Local alignment

Local alignment gives the alignment order in which only the most similar regions of n sequences are aligned in n dimensions. The measure of similarity differs between the parameters selected. The cells of scoring matrix are more homogeneous than those of global alignment matrix. No highest score less than zero is recorded and a pointer is only added when a score is greater than zero. In the end, trace-back begins from the maximum score and ends at the origin of matrix. This variation of assigning scores in a matrix makes local alignment more stringent than global alignment.